Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MYCN

Cell type

Cell type Class
Neural
Cell type
COG-N-415
NA
NA

Attributes by original data submitter

Sample

source_name
neuroblastoma-derived cell line
growth media
IMDM, 20% FBS, 2mM L-glutamine, 1:1000 ITS Premix Supplement
cell line
COGN415
mycn status
amp
chip antibody
N-MYC (Active Motif, #61185)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked, flash frozen, and sent to Active Motif. According to Active Motif protocol, cells were lysed, sonicated, and then DNA-protein complexes were isolated with antibodies. Samples were reverse-crosslinked and DNA was purified. Illumina libraries were prepared by Active Motif using standard consecutive enzymatic steps of end-polishing, dA-addition, and adaptor ligation. After 15 cycles of PCR amplification, the resulting DNA libraries were quantified and sequenced on Illumina NextSeq 500.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
35714297
Reads aligned (%)
83.5
Duplicates removed (%)
14.4
Number of peaks
23900 (qval < 1E-05)

hg38

Number of total reads
35714297
Reads aligned (%)
84.3
Duplicates removed (%)
13.9
Number of peaks
23928 (qval < 1E-05)

Base call quality data from DBCLS SRA